Gene detail

Detailed information of OS493_036066-T1 in Lophelia pertusa

Genomic Location: scaffold_346:114024...120966
NR annotation: KAJ7369840.1, Mediator of RNA polymerase II transcription subunit 6 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7Q107	Mediator of RNA polymerase II transcription subunit 6 OS=Anopheles gambiae OX=7165 GN=MED6 PE=3 SV=3
Q3SZY9	Mediator of RNA polymerase II transcription subunit 6 OS=Bos taurus OX=9913 GN=MED6 PE=2 SV=1
Q921D4	Mediator of RNA polymerase II transcription subunit 6 OS=Mus musculus OX=10090 GN=Med6 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007315 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04934 all species →	Med6	MED6 mediator sub complex component	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007018 all species →	Family	Mediator complex, subunit Med6	Interproscan
IPR038566 all species →	Homologous_superfamily	Mediator complex, subunit Med6 superfamily	Interproscan
IPR016820 all species →	Family	Mediator complex, subunit Med6, metazoa/plant	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13104 all species →	MED-6-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003712 all species →	Molecular Function	transcription coregulator activity	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0016592 all species →	Cellular Component	mediator complex	Interproscan
GO:0003713 all species →	Molecular Function	transcription coactivator activity	Interproscan
GO:0070847 all species →	Cellular Component	core mediator complex	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K15128	MED6; mediator of RNA polymerase II transcription subunit 6	-	Transcription machinery	ko03021	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_036066-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

51.9Max TPM

16.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.83	37.60
polyp at pH7 6	18	18	23.39	51.91
coral polyp · control treatment	16	16	16.29	25.48
coral polyp · oil and dispersant treatment	16	16	13.21	28.43
coral polyp · oil treatment	16	16	15.70	24.20
coral polyp · dispersant treatment	16	16	9.73	23.46
Polyp	10	10	16.57	26.15

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.60
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.14
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.82
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.57
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.33
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.66
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.79
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.23
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.79
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.48
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.91
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.19
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.62
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.08
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.27
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.44
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.57
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.94
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.19
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.05
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.81
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.73
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.46
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.93
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.39
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.18
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.57
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.00
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.66
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.16
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.30
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.29
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.23
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.43
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.75
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.99
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.97
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.90
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.51
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.97
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.88
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.90
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.80
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.48
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.78
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.77
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.51
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.20
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.23
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.89
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.85
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.72
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.47
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.79
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.22
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.71
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.42
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.23
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.73
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.65
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.18
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.33
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.01
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	25.44
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	18.85
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.24
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.63
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.10
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.51

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.